Libraries

Complete Merged Data Stats

The data is made up of 46595 cells consisting 3 Control samples (22819 cells) and 4 Depleted samples (23776 cells)

SC DATA POST PROCESSING

36669 cells collected post processing meeting the requirements; - Less than < 15% mitochondrial gene content - Greater than > 500 genes and less than < 6000 genes expressed - Greater than > 1000 UMIs and less than < 25000s UMI expressed - Genes Expressed in a minimum of 10 cells (12978 genes)

UMAP PLOT and ANNOTATION

The Data was transformed using 11 PC dimensions and 30 K-nearest neighbors to generate a UMAP in 2 dimensions at a clustering resolution of 0.6. The top 20 representing markers of each cluster were then processed through CHATGpt for annotation.

3D plot

Below are 2 explorable merged complete data object with dynamic legends. Double click on a cell type to isolate that cluster and single click to select/deselect a cluster. The colors of the complex object do not match the orginal object.

Simple Merged Object Explorable

Complex Merged Object Explorable

#Attempt at running Icytotrace on merged object

#Extracting barcode ids and plotting them back on seurat for scdata

#Cell Annotation

CytoTRACE2 RNA Velocity

CytoTRACE2 RNA Velocity 3D SIMPLE

CytoTRACE2 Complex Merged Object Explorable

CytoTRACE2 RNA velocity on Complete Data

Cell Propotions

Facetted by CytoTRACE2 Potency

Facetted by Clusters

PanglaoDB marker set

Panglaodb function

Panglao DB plots

###memory efficient chunk

RUnning cytotrace on Panglaodb

####Extracting barcode ids and plotting them back on seurat for panglao